MolNFT v1 · #87050 · protein

Oligopeptidase B from trypanosoma brucei - open form

4BP8: “Oligopeptidase B from trypanosoma brucei - open form”. X-ray diffraction, 20 pockets (best druggability 0.70). MolNFT v1 #87050 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4BP8
Type: protein
Length: 1,424 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Oligopeptidase B
EC: 3.4.21.83
UniProt: O76728
Pockets: 20 · best druggability 0.70

Structure

x-ray diffraction · 1 distinct chain · 23% helix, 31% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Oligopeptidase B (EC 3.4.21.83)	protein	712	23% helix, 31% strand	O76728

Pockets

20 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	297	0.70	0.85	46	empty
2	712	0.68	0.76	72	empty
3	690	0.68	0.76	70	empty
4	532	0.67	0.78	54	empty
5	297	0.66	0.82	42	empty

Interfaces

1 interface between chains.

A–B · 1138 Å² buried · 6 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 34 modified (engineered).

Compared structures

4BP8 · Oligopeptidase B from Trypanosoma brucei - open form · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt O76728
Elsewhere: RCSB PDB 4BP8 · PDBe 4BP8 · UniProt O76728

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